Abstract
BackgroundMany important agricultural traits such as weight gain, milk fat content and intramuscular fat (marbling) in cattle are quantitative traits. Most of the information on these traits has not previously been integrated into a genomic context. Without such integration application of these data to agricultural enterprises will remain slow and inefficient. Our goal was to populate a genomic database with data mined from the bovine quantitative trait literature and to make these data available in a genomic context to researchers via a user friendly query interface.DescriptionThe QTL (Quantitative Trait Locus) data and related information for bovine QTL are gathered from published work and from existing databases. An integrated database schema was designed and the database (MySQL) populated with the gathered data. The bovine QTL Viewer was developed for the integration of QTL data available for cattle. The tool consists of an integrated database of bovine QTL and the QTL viewer to display QTL and their chromosomal position.ConclusionWe present a web accessible, integrated database of bovine (dairy and beef cattle) QTL for use by animal geneticists. The viewer and database are of general applicability to any livestock species for which there are public QTL data. The viewer can be accessed at .
Highlights
Many important agricultural traits such as weight gain, milk fat content and intramuscular fat in cattle are quantitative traits
We present a web accessible, integrated database of bovine Quantitative Trait Locus (QTL) for use by animal geneticists
The viewer and database are of general applicability to any livestock species for which there are public QTL data
Summary
Many important agricultural traits such as weight gain, milk fat content and intramuscular fat (marbling) in cattle are quantitative traits. Most of the information on these traits has not previously been integrated into a genomic context Without such integration application of these data to agricultural enterprises will remain slow and inefficient. While there are livestock genetic map viewers [1,2] and at least one QTL database [3], to the best of our knowledge there is only one other bovine QTL viewer available [4], but it is not dynamic and is restricted to one meta-analysis of dairy QTL data [5] Our inspiration for this effort was RatMap [6], but our code and database schema differ substantially from theirs. Our QTL viewer is able to show the contents of the database in a manner suitable for both novice and expert users
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